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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GATAAAGCGTAATCCTGATGATCGGCGAATCATTCTCTCTGCATGGAATCCAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagcttaattcaggtttttctttgaaaaattgccccttccacatattccacctattgatatttttaatttttaacttttgcag

Basic information

species Glycine max
transcript GLYMA06G01280.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G01280.3 (Glycine max), 5'ss of exon 8
lower sequence: Vv03s0038g04500.t01 (Vitis vinifera), 5'ss of exon 9
GATAAAGCGTAATCCTGATGATCGGCGAATCATTCTCTCTGCATGGAATCCAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagcttaattcaggtttttctttgaaaaattgccccttccacatattccacctattgatatttttaatttttaacttttgcag
||| |||  ||||||  ||||||| || || || ||||| || ||||||||    ||||| ||||| |||||||||||||||||||| ||||||||||||||  | |  ||||    | || ||  |      ||| ||  |  ||  |||  |    ||| | ||||||  |||||   | ||||||
GATCAAGAATAATCCGAATGATCGACGGATTATCCTCTCAGCTTGGAATCCTTCTGATCTCAAATTGATGGCACTTCCACCCTGCCATATGTTTGCACAGgttagta--ttaaagtggcttatttat------atttcctttatcatttatgtctttgatt-acatttttcctttttc-ttcttgcag

upper sequence: GLYMA06G01280.3 (Glycine max), 5'ss of exon 8
lower sequence: Vv18s0001g12940.t01 (Vitis vinifera), 5'ss of exon 7
GATAAAGCGTAATCCTGATGATCGGCGAATCATTCTCTCTGCATGGAATCCAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagcttaattcaggtttttctttgaaaaattgccccttccacatattccacctattgatatttttaattttta-acttttgcag-----
||| |||  ||| ||||||||  |||| || || |||||| | |||||||||   ||||||||||| ||||||||||| || ||||||||||||||||| || || | | |  |  |  | | | | | |    || || | |       |   |       || ||| | ||||    | || | ||      
GATCAAGAATAAACCTGATGACAGGCGTATTATACTCTCTTCTTGGAATCCATCTGATCTTAAATTGATGGCACTTCCGCCTTGCCACATGTTTGCACAAgtttggaacatgct--aattctctttatcatttttttcctcattttacggtagtaaaatgcaatgtttcttatttgcgtatttctacattgcag
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|193530211|gb|FK486200.1|FK486200
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
EST: gi|193712037|gb|FK647912.1|FK647912
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGT
EST: gi|193425772|gb|FK385705.1|FK385705
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
EST: gi|192311470|gb|FK005201.1|FK005201
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
EST: gi|192311469|gb|FK005200.1|FK005200
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
EST: gi|207821670|gb|GD793927.1|GD793927
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
EST: gi|193678634|gb|FK615398.1|FK615398
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGT
EST: gi|193646218|gb|FK589975.1|FK589975
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTATCAGCGATCTGCT
EST: gi|208075014|gb|GD875511.1|GD875511
EST:     CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAG                         TTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTAT
genomic: CAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagct ... acttttgcagTTTTATGTAGCACACGGGGAGTTATCATGTCAAATGTAT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GATAAAGCGTAATCCTGATGATCGGCGAATCATTCTCTCTGCATGGAATCCAGTGGATCTTAAATTAATGGCACTTCCACCCTGCCACATGTTTGCACAGgtctgcagcttaattcaggtttttctttgaaaaattgccccttccacatattccacctattgatatttttaatttttaacttttgcag

- - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA